Sodium in PDB 5nm2: A2A Adenosine Receptor Cryo Structure

The structure of A2A Adenosine Receptor Cryo Structure, PDB code: 5nm2 was solved by T.Weinert, R.Cheng, D.James, D.Gashi, P.Nogly, K.Jaeger, A.S.Dore, T.Geng, R.Cooke, M.Hennig, J.Standfuss, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.37 / 1.95
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	39.428, 179.599, 139.847, 90.00, 90.00, 90.00
R / Rfree (%)	17.5 / 21.2

The binding sites of Sodium atom in the A2A Adenosine Receptor Cryo Structure (pdb code 5nm2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the A2A Adenosine Receptor Cryo Structure, PDB code: 5nm2:

Sodium binding site 1 out of 1 in the A2A Adenosine Receptor Cryo Structure


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of A2A Adenosine Receptor Cryo Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1201 b:44.3 occ:1.00 O A:HOH1337 2.3 53.6 1.0 OD1 A:ASP52 2.5 36.2 1.0 O A:HOH1383 2.5 58.2 1.0 OG A:SER91 2.5 24.2 1.0 O A:HOH1320 2.8 28.6 1.0 HG A:SER91 3.1 29.1 1.0 HB3 A:SER91 3.2 29.1 1.0 CG A:ASP52 3.3 35.6 1.0 CB A:SER91 3.4 24.2 1.0 OD2 A:ASP52 3.5 37.6 1.0 HD11 A:LEU48 3.5 41.2 1.0 HD12 A:LEU48 3.6 41.2 1.0 HD2 A:PHE242 3.6 34.0 1.0 HE2 A:PHE242 3.7 33.4 1.0 HB2 A:SER91 3.8 29.1 1.0 HG A:SER281 3.8 37.7 1.0 OD1 A:ASN280 3.8 32.3 1.0 CD1 A:LEU48 4.0 34.3 1.0 HB3 A:ALA51 4.3 35.0 1.0 CD2 A:PHE242 4.3 28.4 1.0 CE2 A:PHE242 4.4 27.9 1.0 HA A:SER281 4.5 34.7 1.0 HA A:ASP52 4.5 33.7 1.0 HG A:LEU48 4.5 40.7 1.0 HE1 A:TRP246 4.5 37.5 1.0 OG A:SER281 4.5 31.4 1.0 HB1 A:ALA51 4.6 35.0 1.0 O A:HOH1339 4.6 27.9 1.0 HD21 A:ASN284 4.7 63.1 1.0 HA A:ALA88 4.7 32.1 1.0 CB A:ASP52 4.7 32.1 1.0 O A:LEU48 4.7 28.1 1.0 CA A:SER91 4.7 25.8 1.0 HA A:SER91 4.7 31.0 1.0 HG21 A:VAL55 4.8 29.5 1.0 HD13 A:LEU48 4.8 41.2 1.0 CG A:LEU48 4.9 33.9 1.0 N A:ASP52 4.9 27.7 1.0 CB A:ALA51 4.9 29.2 1.0 H A:ASP52 4.9 33.2 1.0 CA A:ASP52 4.9 28.1 1.0 O A:LEU87 4.9 26.9 1.0 CG A:ASN280 5.0 31.5 1.0

T.Weinert, N.Olieric, R.Cheng, S.Brunle, D.James, D.Ozerov, D.Gashi, L.Vera, M.Marsh, K.Jaeger, F.Dworkowski, E.Panepucci, S.Basu, P.Skopintsev, A.S.Dore, T.Geng, R.M.Cooke, M.Liang, A.E.Prota, V.Panneels, P.Nogly, U.Ermler, G.Schertler, M.Hennig, M.O.Steinmetz, M.Wang, J.Standfuss. Serial Millisecond Crystallography For Routine Room-Temperature Structure Determination at Synchrotrons. Nat Commun V. 8 542 2017.
ISSN: ESSN 2041-1723
PubMed: 28912485
DOI: 10.1038/S41467-017-00630-4